Dear FS experts
We would like to transform the sig.mgh file to an annotation file in order to extract the thickness value in each individual brain.
The problem is that we have 3 clusters in the sig.mgh file and we would like to split these 3 clusters into annotations in order to compute cortical thickness within each single cluster.
How to do it?
Thanks in advance Regards Jürgen
---------------------------------------------------------------------------- Jürgen Hänggi, Ph.D. Division Neuropsychology Institute of Psychology University of Zurich Binzmuehlestrasse 14, PO Box 25 8050 Zurich, Switzerland 0041 44 635 73 97 (phone office) 0041 76 445 86 84 (phone mobile) 0041 44 635 74 09 (fax office) BIN 4.D.04 (office room number) j.haenggi[at]psychologie.uzh.ch (email) http://www.psychologie.uzh.ch/neuropsy/ (website) http://www.juergenhaenggi.ch (private website)
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Hi Jürgen,
why not creat a label for each one, then use mri_label2label to map it to individual subjects, then use mris_anatomical_stats to extract the thickness in each label (with -l <label>)
cheers Bruce On Wed, 19 Jan 2011, Jürgen Hänggi wrote:
Dear FS experts
We would like to transform the sig.mgh file to an annotation file in order to extract the thickness value in each individual brain.
The problem is that we have 3 clusters in the sig.mgh file and we would like to split these 3 clusters into annotations in order to compute cortical thickness within each single cluster.
How to do it?
Thanks in advance Regards Jürgen
Jürgen Hänggi, Ph.D. Division Neuropsychology Institute of Psychology University of Zurich Binzmuehlestrasse 14, PO Box 25 8050 Zurich, Switzerland 0041 44 635 73 97 (phone office) 0041 76 445 86 84 (phone mobile) 0041 44 635 74 09 (fax office) BIN 4.D.04 (office room number) j.haenggi[at]psychologie.uzh.ch (email) http://www.psychologie.uzh.ch/neuropsy/ (website) http://www.juergenhaenggi.ch (private website)
This e-mail (and any attachment/s) contains confidential and/or privileged information. If you are not the intended recipient (or have received this e-mail in error) please notify the sender immediately and destroy this e-mail. Any unauthorised copying, disclosure or distribution of the material in this e-mail is strictly forbidden.
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How do you define the clusters? You can use mri_surfcluster to define clusters, and it can output annotations. You can also use mris_label2annot if you have clusters defined as labels.
doug
Jürgen Hänggi wrote:
Dear FS experts
We would like to transform the sig.mgh file to an annotation file in order to extract the thickness value in each individual brain.
The problem is that we have 3 clusters in the sig.mgh file and we would like to split these 3 clusters into annotations in order to compute cortical thickness within each single cluster.
How to do it?
Thanks in advance Regards Jürgen
Jürgen Hänggi, Ph.D. Division Neuropsychology Institute of Psychology University of Zurich Binzmuehlestrasse 14, PO Box 25 8050 Zurich, Switzerland 0041 44 635 73 97 (phone office) 0041 76 445 86 84 (phone mobile) 0041 44 635 74 09 (fax office) BIN 4.D.04 (office room number) j.haenggi[at]psychologie.uzh.ch (email) http://www.psychologie.uzh.ch/neuropsy/ (website) http://www.juergenhaenggi.ch (private website)
This e-mail (and any attachment/s) contains confidential and/or privileged information. If you are not the intended recipient (or have received this e-mail in error) please notify the sender immediately and destroy this e-mail. Any unauthorised copying, disclosure or distribution of the material in this e-mail is strictly forbidden.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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Bruce Fischl -
Douglas N Greve -
Jürgen Hänggi